Condensation of hydrodynamically stretched DNA using single molecule fluorescence imaging and optical tweezers

E  Theofanidou; T J  Su; J  Arlt; D T F  Dryden; W J  Hossack; J  Crain; Wilson Poon

Condensation of hydrodynamically stretched DNA using single molecule fluorescence imaging and optical tweezers

E Theofanidou, T J Su, J Arlt, D T F Dryden, W J Hossack, J Crain, Wilson Poon

School of Physics and Astronomy

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

Abstract

We have observed a latency time (tau) of the order 10 s in the spermidine-induced condensation of YOYO-1-labelled DNA in flow. Higher flow speeds, longer DNA and higher salt all led to an increase in tau. We propose that two effects may be relevant to these observations (1) the competition between spermidine and YOYO-1 for DNA binding sites, and (2) the bending of DNA upon spermidine binding, so that flow-induced straightening of the DNA weakens spermidine's affinity for DNA. Moreover, literature data on the mechanical properties of condensed DNA chains suggest that the hydrodynamic drag forces in our experiments should indeed significantly perturb condensation kinetics.

Original language	English
Title of host publication	OPTICAL TRAPPING AND OPTICAL MICROMANIPULATION
Editors	K Dholakia, GC Spalding
Place of Publication	BELLINGHAM
Publisher	SPIE
Pages	225-233
Number of pages	9
ISBN (Print)	0-8194-5452-4
Publication status	Published - 2004
Event	Conference on Optical Trapping and Optical Micromanipulation - Denver Duration: 2 Aug 2004 → 6 Aug 2004

Conference

Conference	Conference on Optical Trapping and Optical Micromanipulation
City	Denver
Period	2/08/04 → 6/08/04

Keywords / Materials (for Non-textual outputs)

DNA condensation
fluorescence imaging
optical tweezers
biophysics
polymer dynamics
fluid dynamics
SEMIFLEXIBLE POLYMER-CHAIN
MULTIVALENT CATIONS
TRANSITION
BINDING

Cite this

@inproceedings{8594716027a7439397c4a93376867473,

title = "Condensation of hydrodynamically stretched DNA using single molecule fluorescence imaging and optical tweezers",

abstract = "We have observed a latency time (tau) of the order 10 s in the spermidine-induced condensation of YOYO-1-labelled DNA in flow. Higher flow speeds, longer DNA and higher salt all led to an increase in tau. We propose that two effects may be relevant to these observations (1) the competition between spermidine and YOYO-1 for DNA binding sites, and (2) the bending of DNA upon spermidine binding, so that flow-induced straightening of the DNA weakens spermidine's affinity for DNA. Moreover, literature data on the mechanical properties of condensed DNA chains suggest that the hydrodynamic drag forces in our experiments should indeed significantly perturb condensation kinetics.",

keywords = "DNA condensation, fluorescence imaging, optical tweezers, biophysics, polymer dynamics, fluid dynamics, SEMIFLEXIBLE POLYMER-CHAIN, MULTIVALENT CATIONS, TRANSITION, BINDING",

author = "E Theofanidou and Su, {T J} and J Arlt and Dryden, {D T F} and Hossack, {W J} and J Crain and Wilson Poon",

year = "2004",

language = "English",

isbn = "0-8194-5452-4",

pages = "225--233",

editor = "K Dholakia and GC Spalding",

booktitle = "OPTICAL TRAPPING AND OPTICAL MICROMANIPULATION",

publisher = "SPIE",

address = "United States",

note = "Conference on Optical Trapping and Optical Micromanipulation ; Conference date: 02-08-2004 Through 06-08-2004",

}

Theofanidou, E, Su, TJ, Arlt, J, Dryden, DTF, Hossack, WJ, Crain, J & Poon, W 2004, Condensation of hydrodynamically stretched DNA using single molecule fluorescence imaging and optical tweezers. in K Dholakia & GC Spalding (eds), OPTICAL TRAPPING AND OPTICAL MICROMANIPULATION. SPIE, BELLINGHAM, pp. 225-233, Conference on Optical Trapping and Optical Micromanipulation, Denver, 2/08/04.

TY - GEN

T1 - Condensation of hydrodynamically stretched DNA using single molecule fluorescence imaging and optical tweezers

AU - Theofanidou, E

AU - Su, T J

AU - Arlt, J

AU - Dryden, D T F

AU - Hossack, W J

AU - Crain, J

AU - Poon, Wilson

PY - 2004

Y1 - 2004

N2 - We have observed a latency time (tau) of the order 10 s in the spermidine-induced condensation of YOYO-1-labelled DNA in flow. Higher flow speeds, longer DNA and higher salt all led to an increase in tau. We propose that two effects may be relevant to these observations (1) the competition between spermidine and YOYO-1 for DNA binding sites, and (2) the bending of DNA upon spermidine binding, so that flow-induced straightening of the DNA weakens spermidine's affinity for DNA. Moreover, literature data on the mechanical properties of condensed DNA chains suggest that the hydrodynamic drag forces in our experiments should indeed significantly perturb condensation kinetics.

AB - We have observed a latency time (tau) of the order 10 s in the spermidine-induced condensation of YOYO-1-labelled DNA in flow. Higher flow speeds, longer DNA and higher salt all led to an increase in tau. We propose that two effects may be relevant to these observations (1) the competition between spermidine and YOYO-1 for DNA binding sites, and (2) the bending of DNA upon spermidine binding, so that flow-induced straightening of the DNA weakens spermidine's affinity for DNA. Moreover, literature data on the mechanical properties of condensed DNA chains suggest that the hydrodynamic drag forces in our experiments should indeed significantly perturb condensation kinetics.

KW - DNA condensation

KW - fluorescence imaging

KW - optical tweezers

KW - biophysics

KW - polymer dynamics

KW - fluid dynamics

KW - SEMIFLEXIBLE POLYMER-CHAIN

KW - MULTIVALENT CATIONS

KW - TRANSITION

KW - BINDING

M3 - Conference contribution

SN - 0-8194-5452-4

SP - 225

EP - 233

BT - OPTICAL TRAPPING AND OPTICAL MICROMANIPULATION

A2 - Dholakia, K

A2 - Spalding, GC

PB - SPIE

CY - BELLINGHAM

T2 - Conference on Optical Trapping and Optical Micromanipulation

Y2 - 2 August 2004 through 6 August 2004

ER -

Condensation of hydrodynamically stretched DNA using single molecule fluorescence imaging and optical tweezers

Abstract

Conference

Keywords / Materials (for Non-textual outputs)

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Cite this